1     M         1.654   1.680   1.746   1.916   1.952   2.045   1.803   1.841   1.942
2     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
3     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
4     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
5     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
6     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
7     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
8     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
9     -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
10    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
11    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
12    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
13    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
14    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
15    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
16    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
17    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
18    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
19    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
20    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
21    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
22    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
23    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
24    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
25    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
26    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
27    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
28    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
29    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
30    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
31    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
32    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
33    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
34    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
35    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
36    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
37    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
38    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
39    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
40    S        -0.839  -0.838  -0.793  -0.781  -0.772  -0.709  -0.840  -0.833  -0.761
41    N        -0.320  -0.335  -0.261  -0.530  -0.537  -0.420  -0.546  -0.558  -0.453
42    T        -0.124  -0.080  -0.198  -0.353  -0.280  -0.471  -0.253  -0.187  -0.360
43    W        -1.358  -1.344  -1.252  -1.476  -1.453  -1.311  -1.134  -1.110  -0.990
44    D         0.031  -0.089  -0.155  -0.125  -0.296  -0.425  -0.032  -0.202  -0.298
45    D         0.811   0.778   0.658   0.676   0.651   0.465   0.783   0.726   0.494
46    V         0.463   0.520   0.514   0.390   0.482   0.455   0.172   0.270   0.225
47    W         1.654   1.680   1.746   1.904   1.939   2.033   1.803   1.841   1.942
48    A        -0.671  -0.700  -0.731  -0.648  -0.724  -0.759  -0.644  -0.676  -0.692
49    S         0.357   0.376   0.455  -0.033   0.000   0.116  -0.032  -0.005   0.109
50    D         0.031   0.012  -0.130  -0.137  -0.168  -0.402  -0.032  -0.064  -0.262
51    S        -0.671  -0.752  -0.759  -0.805  -0.922  -0.933  -0.644  -0.735  -0.724
52    D        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
53    V        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
54    E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
55    T        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
56    -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
57    -        -0.839  -0.849  -0.795  -0.698  -0.733  -0.647  -0.840  -0.848  -0.763
58    -        -0.839  -0.787  -0.784  -0.739  -0.650  -0.670  -0.840  -0.776  -0.752
59    E         0.031   0.025  -0.110  -0.023  -0.033  -0.246  -0.032  -0.039  -0.233
60    R        -1.266  -1.298  -1.221  -1.257  -1.293  -1.164  -1.052  -1.071  -0.964
61    S        -0.238  -0.194  -0.231  -0.254  -0.186  -0.248  -0.440  -0.393  -0.415
62    P        -1.266  -1.276  -1.223  -1.088  -1.130  -1.064  -1.052  -1.053  -0.966
63    D        -0.834  -0.766  -0.780  -1.086  -0.976  -0.973  -0.848  -0.770  -0.752
64    L        -0.839  -0.866  -0.804  -0.905  -0.935  -0.821  -0.840  -0.864  -0.773
65    V        -1.358  -1.336  -1.252  -1.305  -1.254  -1.142  -1.134  -1.104  -0.990
66    K        -0.238  -0.270  -0.228  -0.505  -0.515  -0.461  -0.440  -0.465  -0.407
67    L        -0.238  -0.270  -0.228  -0.428  -0.456  -0.387  -0.440  -0.465  -0.407
68    R        -0.671  -0.664  -0.719  -0.603  -0.593  -0.658  -0.644  -0.630  -0.679
69    E        -0.671  -0.636  -0.734  -0.535  -0.479  -0.686  -0.644  -0.598  -0.696
70    N        -1.266  -1.276  -1.223  -1.093  -1.135  -1.037  -1.052  -1.053  -0.966
71    H         1.654   1.680   1.746   1.910   1.947   2.039   1.803   1.841   1.942
72    S         0.811   0.861   0.679   0.915   0.981   0.740   0.783   0.860   0.533
73    K         0.811   0.722   0.647   0.791   0.672   0.560   0.783   0.631   0.475
74    R        -0.671  -0.662  -0.737  -0.428  -0.428  -0.546  -0.644  -0.633  -0.699
75    G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
76    Y         1.654   1.680   1.746   1.824   1.858   1.954   1.803   1.841   1.942
77    L         0.811   0.861   0.679   0.733   0.803   0.555   0.783   0.860   0.533
78    D         0.811   0.722   0.647   0.684   0.578   0.463   0.783   0.631   0.475
79    G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
80    I         0.811   0.722   0.647   0.914   0.796   0.678   0.783   0.631   0.475
81    V        -0.238  -0.237  -0.229  -0.155  -0.153  -0.144  -0.440  -0.425  -0.410
82    S         0.031  -0.022  -0.128   0.126   0.034  -0.129  -0.032  -0.109  -0.260
83    S         0.811   0.848   0.665   0.996   1.038   0.770   0.783   0.840   0.508
84    K         1.654   1.680   1.746   1.549   1.589   1.682   1.803   1.841   1.942
85    E         0.811   0.722   0.647   0.701   0.561   0.419   0.783   0.631   0.475
86    E         0.463   0.528   0.532   0.208   0.308   0.305   0.172   0.285   0.258
87    K        -0.238  -0.210  -0.230  -0.306  -0.258  -0.300  -0.440  -0.400  -0.413
88    L         1.654   1.680   1.746   1.490   1.530   1.623   1.803   1.841   1.942
89    Q         1.654   1.680   1.746   1.749   1.778   1.879   1.803   1.841   1.942
90    E        -0.834  -0.823  -0.782  -1.037  -1.004  -0.920  -0.848  -0.825  -0.754
91    G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
92    F         1.654   1.680   1.746   1.842   1.879   1.972   1.803   1.841   1.942
93    N         0.463   0.442   0.475   0.165   0.146   0.184   0.172   0.123   0.149
94    D         0.031   0.012  -0.130   0.008  -0.015  -0.177  -0.032  -0.064  -0.262
95    G        -0.671  -0.596  -0.706  -0.625  -0.514  -0.689  -0.644  -0.551  -0.664
96    F         0.463   0.446   0.482   0.574   0.536   0.577   0.172   0.131   0.162
97    P         1.654   1.680   1.746   1.879   1.911   2.009   1.803   1.841   1.942
98    T        -1.266  -1.248  -1.213  -1.360  -1.324  -1.269  -1.052  -1.027  -0.957
99    G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
100   A         0.811   0.722   0.647   0.987   0.846   0.723   0.783   0.631   0.475
101   K        -0.238  -0.257  -0.220  -0.466  -0.469  -0.421  -0.440  -0.447  -0.398
102   L         0.811   0.778   0.658   0.748   0.711   0.548   0.783   0.726   0.494
103   G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
104   K        -0.834  -0.834  -0.791  -0.937  -0.928  -0.860  -0.848  -0.837  -0.762
105   Q        -1.266  -1.224  -1.214  -1.093  -1.042  -1.023  -1.052  -1.005  -0.958
106   V         0.463   0.420   0.468   0.427   0.332   0.390   0.172   0.081   0.136
107   G         1.654   1.680   1.746   1.614   1.642   1.747   1.803   1.841   1.942
108   I        -1.266  -1.230  -1.206  -1.243  -1.182  -1.139  -1.052  -1.010  -0.951
109   I         1.654   1.680   1.746   1.672   1.712   1.804   1.803   1.841   1.942
110   M        -1.266  -1.282  -1.233  -1.088  -1.084  -0.981  -1.052  -1.058  -0.974
111   G         0.811   0.861   0.679   0.861   0.918   0.680   0.783   0.860   0.533
112   I        -1.699  -1.675  -1.591  -1.429  -1.389  -1.265  -1.256  -1.226  -1.112
113   L         1.654   1.680   1.746   1.490   1.530   1.623   1.803   1.841   1.942
114   L        -0.834  -0.834  -0.791  -0.798  -0.790  -0.727  -0.848  -0.837  -0.762
115   G        -0.671  -0.625  -0.718  -0.644  -0.588  -0.731  -0.644  -0.585  -0.677
116   L        -1.266  -1.276  -1.223  -1.177  -1.199  -1.077  -1.052  -1.053  -0.966
117   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
118   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
119   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
120   R        -0.291  -0.262  -0.252  -0.252  -0.196  -0.214  -0.491  -0.449  -0.435
121   T        -0.291  -0.278  -0.252  -0.165  -0.152  -0.116  -0.491  -0.471  -0.436
122   R         0.602   0.596   0.557   0.642   0.626   0.508   0.427   0.408   0.306
123   F        -0.291  -0.284  -0.251  -0.121  -0.115  -0.067  -0.491  -0.480  -0.434
124   G         1.654   1.680   1.746   1.630   1.668   1.762   1.803   1.841   1.942
125   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
126   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
127   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
128   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
129   D        -0.291  -0.262  -0.252  -0.618  -0.575  -0.560  -0.491  -0.449  -0.435
130   E        -0.124  -0.157  -0.216  -0.335  -0.380  -0.471  -0.253  -0.299  -0.384
131   D         1.654   1.680   1.746   1.414   1.455   1.548   1.803   1.841   1.942
132   E        -0.839  -0.839  -0.804  -0.901  -0.893  -0.836  -0.840  -0.834  -0.773
133   D        -0.671  -0.752  -0.759  -0.759  -0.894  -0.915  -0.644  -0.735  -0.724
134   L         0.031   0.025  -0.110   0.011   0.005  -0.176  -0.032  -0.039  -0.233
135   S        -0.839  -0.838  -0.793  -0.803  -0.794  -0.738  -0.840  -0.835  -0.761
136   K        -0.839  -0.873  -0.804  -0.934  -0.996  -0.868  -0.840  -0.871  -0.773
137   A        -0.839  -0.846  -0.792  -0.971  -0.999  -0.885  -0.840  -0.842  -0.760
138   Y        -0.671  -0.752  -0.759  -0.445  -0.608  -0.636  -0.644  -0.735  -0.724
139   I        -0.834  -0.771  -0.777  -0.951  -0.848  -0.874  -0.848  -0.775  -0.749
140   D        -0.671  -0.578  -0.699  -0.575  -0.428  -0.655  -0.644  -0.527  -0.656
141   A         1.654   1.680   1.746   1.774   1.801   1.904   1.803   1.841   1.942
142   Q        -0.238  -0.301  -0.244  -0.324  -0.405  -0.301  -0.440  -0.514  -0.432
143   K        -0.671  -0.596  -0.706  -0.719  -0.614  -0.785  -0.644  -0.551  -0.664
144   E         1.654   1.680   1.746   1.523   1.554   1.656   1.803   1.841   1.942
145   L         1.654   1.680   1.746   1.490   1.530   1.623   1.803   1.841   1.942
146   R        -0.834  -0.831  -0.797  -0.687  -0.690  -0.623  -0.848  -0.837  -0.768
147   I         0.811   0.722   0.647   0.895   0.772   0.643   0.783   0.631   0.475
148   N        -1.266  -1.224  -1.214  -1.068  -0.987  -0.993  -1.052  -1.005  -0.958
149   K        -0.834  -0.771  -0.777  -0.722  -0.627  -0.634  -0.848  -0.775  -0.749
150   V         0.463   0.460   0.483   0.427   0.410   0.422   0.172   0.157   0.165
151   L         0.811   0.722   0.647   0.752   0.642   0.540   0.783   0.631   0.475
152   S        -1.266  -1.224  -1.214  -1.151  -1.124  -1.071  -1.052  -1.005  -0.958
153   K         0.031  -0.089  -0.155   0.083  -0.083  -0.166  -0.032  -0.202  -0.298
154   S        -0.238  -0.284  -0.228  -0.188  -0.256  -0.171  -0.440  -0.488  -0.410
155   I        -0.238  -0.237  -0.229  -0.105  -0.084  -0.073  -0.440  -0.425  -0.410
156   F         0.811   0.722   0.647   1.111   0.996   0.889   0.783   0.631   0.475
157   D         0.463   0.460   0.483   0.192   0.195   0.230   0.172   0.157   0.165
158   P         0.031  -0.032  -0.139   0.087  -0.008  -0.122  -0.032  -0.123  -0.276
159   N         0.031   0.015  -0.134  -0.105  -0.117  -0.358  -0.032  -0.054  -0.268
160   F        -0.671  -0.673  -0.742  -0.583  -0.592  -0.638  -0.644  -0.645  -0.705
161   D        -1.266  -1.280  -1.215  -1.174  -1.179  -1.114  -1.052  -1.057  -0.959
162   L         0.463   0.420   0.468   0.283   0.225   0.313   0.172   0.081   0.136
163   Q        -1.699  -1.675  -1.591  -1.592  -1.557  -1.426  -1.256  -1.226  -1.112
164   E        -1.266  -1.248  -1.213  -1.398  -1.339  -1.301  -1.052  -1.027  -0.957
165   K        -0.671  -0.671  -0.723  -0.607  -0.634  -0.709  -0.644  -0.643  -0.683
166   -        -0.839  -0.865  -0.814  -0.927  -0.985  -0.936  -0.840  -0.864  -0.784
167   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
168   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
169   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
170   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
171   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
172   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
173   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
174   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
175   -        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
176   H         0.811   0.778   0.658   1.109   1.063   0.849   0.783   0.726   0.494
177   P        -0.238  -0.232  -0.214  -0.181  -0.153  -0.130  -0.440  -0.417  -0.388
178   L         0.463   0.548   0.520   0.223   0.356   0.306   0.172   0.322   0.236
179   I        -0.238  -0.270  -0.237  -0.301  -0.354  -0.311  -0.440  -0.477  -0.423
180   T        -1.266  -1.248  -1.213  -1.090  -1.087  -1.002  -1.052  -1.027  -0.957
181   K         0.811   0.722   0.647   0.791   0.672   0.560   0.783   0.631   0.475
182   W         1.654   1.680   1.746   1.904   1.939   2.033   1.803   1.841   1.942
183   T        -0.238  -0.209  -0.220  -0.344  -0.315  -0.291  -0.440  -0.398  -0.399
184   D        -0.671  -0.636  -0.734  -0.575  -0.504  -0.718  -0.644  -0.598  -0.696
185   I        -0.839  -0.866  -0.804  -0.779  -0.835  -0.729  -0.840  -0.864  -0.773
186   A        -0.124  -0.159  -0.186   0.024  -0.042  -0.088  -0.253  -0.304  -0.343
187   N        -1.358  -1.336  -1.252  -1.337  -1.337  -1.174  -1.134  -1.104  -0.990
188   T        -1.358  -1.336  -1.252  -1.277  -1.232  -1.114  -1.134  -1.104  -0.990
189   Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
190   C        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
191   E        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
192   K        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
193   Y        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
194   H        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
195   V        -0.291  -0.304  -0.264  -0.267  -0.276  -0.242  -0.491  -0.508  -0.452
196   P        -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000  -1.000     *
197   S        -0.320  -0.303  -0.262  -0.623  -0.600  -0.523  -0.546  -0.518  -0.452
198   I        -1.358  -1.331  -1.252  -1.029  -0.999  -0.869  -1.134  -1.100  -0.990
199   Q        -0.834  -0.834  -0.791  -0.998  -1.000  -0.906  -0.848  -0.837  -0.762
* gap fraction no less than  0.50; conservation set to M-S
  M: mean;  S: standard deviation

al2co - The parameters are:

Input alignment file - ../mafft-mac/clustal/P47118
Output conservation file - output/P47118
All 9 methods are used - true 
   1. unweighted entropy measure; 2. Henikoff entropy measure;
   3. independent count entropy measure;
   4. unweighted variance measure; 5. Henikoff variance measure;
   6. independent count variance measure;
   7. unweighted matrix-based sum-of-pairs measure;
   8. Henikoff matrix-based sum-of-pairs measure;
   9. independent count matrix-based sum-of-pairs measure;
Window size - 1
Conservation normalized to zero mean and unity variance
Gap fraction to suppress calculation -  0.50
